FUN_ecto: FUN_ecto

In mrke/NicheMapR: R implementation of Niche Mapper software for biophysical modelling

FUN_ecto

Description

R version of Fortran FUN.f (ectotherm model) for guessing a core body temperature that balances the heat budget.

Usage

FUN_ecto(
  AMASS = AMASS,
  GEOMETRY = GEOMETRY,
  ATOT = AREA,
  AV = AV,
  AT = AT,
  AL = AL,
  VOL = VOL,
  R = R,
  R1 = R1,
  RINSUL = RINSUL,
  ASEMAJR = ASEMAJR,
  BSEMINR = BSEMINR,
  CSEMINR = CSEMINR,
  CONV_ENHANCE = CONV_ENHANCE,
  M_1 = M_1,
  M_2 = M_2,
  M_3 = M_3,
  M_4 = M_4,
  Q_ACT = Q_ACT,
  EXTREF = EXTREF,
  PANT = PANT,
  RQ = RQ,
  FLSHCOND = FLSHCOND,
  PSI_BODY = PSI_BODY,
  SKINW = SKINW,
  AEFF = AEFF,
  PEYES = PEYES,
  LEAF = LEAF,
  G_VS_AB = G_VS_AB,
  G_VS_AD = G_VS_AD,
  FATOSK = FATOSK,
  FATOSB = FATOSB,
  FATOBJ = FATOBJ,
  EMISAN = EMISAN,
  EMISSB = EMISSB,
  EMISSK = EMISSK,
  FLTYPE = FLTYPE,
  TA = TA,
  TSKY = TSKY,
  TSUBST = TSUBST,
  TGRD = TGRD,
  VEL = VEL,
  QSOLAR = QSOLAR,
  QIRIN = QIRIN,
  RELHUM = RELHUM,
  BP = BP,
  ALT = ALT,
  SUBTK = SUBTK,
  O2GAS = O2GAS,
  CO2GAS = CO2GAS,
  N2GAS = N2GAS,
  X
)

Arguments

AMASS	body mass, kg
GEOMETRY	organism shape, 0-5, 0=plate, 1=cyl, 2=ellips, 3=lizard (desert iguana), 4=frog (leopard frog), 5=custom
ATOT	total body surface area (m2)
AV	ventral surface area (m2)
AT	body surface area contacting another organism of same temperature (m2)
AL	animal characteristic dimension (length) (m)
VOL	body volume (m3)
R	total body radius (m)
R1	flesh radius (i.e. radius to start of insulation if present) (m)
RINSUL	depth of insulation (m) (not yet used)
ASEMAJR	length of semi-major radius for ellipsoid (m)
BSEMINR	length of semi-minor radius 1 for ellipsoid (m)
CSEMINR	length of semi-minor radius 2 for ellipsoid (m)
CONV_ENHANCE	convective enhancement factor, accounting for enhanced turbulent convection in outdoor conditions compared to what is measured in wind tunnles, see Kolowski & Mitchell 1976 10.1115/1.3450614 and Mitchell 1976 https://doi.org/10.1016/S0006-3495(76)85711-6
M_1	metabolic rate parameter 1 V_O2=M_1*M^M_2*10^(M_3*Tb)*10^M_4, in ml O2 / h, default parameters for lizards based on Eq. 2 from Andrews & Pough 1985. Physiol. Zool. 58:214-231
M_2	metabolic rate parameter 2
M_3	metabolic rate parameter 3
M_4	metabolic rate parameter 4
Q_ACT	Metabolic offset (W) for locomotion or some other activity additional to basal
EXTREF	oxygen extraction efficiency (%)
PANT	multiplier on breathing rate, for respiratory water loss via panting
RQ	respiratory quotient (fractional, 0-1)
FLSHCOND	thermal conductivity of flesh (W/mK)
PSI_BODY	water potential of body (J/kg) - affects skin humidity for water vapour exchange
SKINW	fraction of total surface area acting as a free water surface (fractional, 0-1)
AEFF	effective area acting as a free-water exchanger, drives cutaneous evaporation (m2)
PEYES	proportion of total surface area that is 'wet' eye (fractional, 0-1)
LEAF	use vapour conductance for evaporation (leaf mode = 1, non-leaf mode = 0)
G_VS_AB	leaf vapour conductance, abaxial (bottom of leaf), mol/m2/s
G_VS_AD	leaf vapour conductance, adaxial (top of leaf), mol/m2/s
FATOSK	configuration factor to sky (-)
FATOSB	configuration factor to substrate (-)
FATOBJ	configuration factor to nearby object (-) (not functional at the moment)
EMISAN	emissivity of animal (fractional, 0-1)
EMISSB	emissivity of substrate (fractional, 0-1)
EMISSK	emissivity of sky (fractional, 0-1)
FLTYPE	fluid type, air (0) or water (1)
TA	air temperature (°C)
TSKY	sky temperature (°C)
TSUBST	substrate temperature (driving conduction) (°C)
TGRD	ground temperature (driving radiation gain) (°C)
VEL	wind speed (m/s)
QSOLAR	solar radiation in, computed by SOLAR_ecto (W)
QIRIN	longwave radiation in, computed by RADIN_ecto (W)
RELHUM	relative humidity (%)
BP	air pressure (Pa)
ALT	elevation (m)
SUBTK	substrate thermal conductivity (W/mK)
O2GAS	oxygen concentration of atmosphere (%)
CO2GAS	carbon dioxide concentration of atmosphere (%)
X	current guess of core body temperature (°C)

mrke/NicheMapR documentation built on Jan. 13, 2025, 9:11 p.m.